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    LOC4333165 probable ubiquitin conjugation factor E4 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4333165, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4333165
    Gene description
    probable ubiquitin conjugation factor E4
    Locus tag
    OSNPB_030427900
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Ubiquitous expression in roots after flowering (RPKM 18.5), leaves before flowering (RPKM 17.6) and 6 other tissues See more
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    Genomic context

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    See LOC4333165 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (18341050..18348038)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (17884897..17892015)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene glutelin type-A 3-like Neighboring gene uncharacterized LOC107280471 Neighboring gene uncharacterized LOC112938237 Neighboring gene alpha-copaene synthase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ubiquitin-ubiquitin ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein polyubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of ubiquitin ligase complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable ubiquitin conjugation factor E4
    Names
    Os03g0427900
    Os03g0428000
    putative U-box domain-containing protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      18341050..18348038
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015776021.3 → XP_015631507.1  probable ubiquitin conjugation factor E4

      UniProtKB/TrEMBL
      A0A0P0VZW9, A2XI79, A3AJB5, Q75I67
      Conserved Domains (2) summary
      cd16657
      Location:945 → 1014
      RING-Ubox_UBE4A; U-box domain, a modified RING finger, found in ubiquitin conjugation factor E4 A (UBE4A) and similar proteins
      pfam10408
      Location:262 → 925
      Ufd2P_core; Ubiquitin elongating factor core
    Nucleotide Protein
    Heading Accession and Version

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